2018.12.04 19:52:21字數 204閱讀 118
[toc]
ubuntu18.10
perl 5.10.1 or later
log::log4perl
file::which (see #17)
ncbi blast-2.2.24+ or later
samtools-1.1 or later
git clone
(cd proovread && make && make install)
(cd proovread && make sample)
(cd proovread && make update)
note: proovread comes with its own, modified version of bwa. using it with a standard bwa built will fail.
試proovread -h
剛開始沒安裝log::log4perl，出現這個錯誤
can't locate log/log4perl.pm in @inc (you may need to install the log::log4perl module) (@inc contains: /etc/perl /usr/local/lib/x86_64-linux-gnu/perl/5.26.2 /usr/local/share/perl/5.26.2 /usr/lib/x86_64-linux-gnu/perl5/5.26 /usr/share/perl5 /usr/lib/x86_64-linux-gnu/perl/5.26 /usr/share/perl/5.26 /usr/local/lib/site_perl /usr/lib/x86_64-linux-gnu/perl-base) at ./proovread line 11.
begin failed--compilation aborted at ./proovread line 11.
cpan log::log4perl
安裝了之後，又試proovread -h
出現沒安裝file::which這個錯誤
can't locate file/which.pm in @inc (you may need to install the file::which module) (@inc contains: /home/sjl/downloads/proovread/bin/../lib/ /etc/perl /usr/local/lib/x86_64-linux-gnu/perl/5.26.2 /usr/local/share/perl/5.26.2 /usr/lib/x86_64-linux-gnu/perl5/5.26 /usr/share/perl5 /usr/lib/x86_64-linux-gnu/perl/5.26 /usr/share/perl/5.26 /usr/local/lib/site_perl /usr/lib/x86_64-linux-gnu/perl-base) at ./proovread line 20.
begin failed--compilation aborted at ./proovread line 20.
cpan file::which安裝
然後就可以proovread -h成功了。
試用可以進入proovread資料夾make sample就可以執行sample資料夾裡的檔案然後生成結果在sample-results裡。
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